Mercurial > repos > iuc > cnvkit_call
comparison call.xml @ 4:978ddcbedd60 draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/cnvkit commit 9d922676808c5f57e9c01b148eec6cc0a63c53e5
| author | iuc |
|---|---|
| date | Sat, 14 Dec 2024 00:00:49 +0000 |
| parents | 0a5e2fc51dfb |
| children |
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| 3:ef7efbffb3ec | 4:978ddcbedd60 |
|---|---|
| 96 <data name="out_sample_Bintest" format="tabular" label="${tool.name} on ${on_string}: Rounded absolute scale copy numbers integer (not log2 ratios)" from_work_dir="tumor.call.cns" /> | 96 <data name="out_sample_Bintest" format="tabular" label="${tool.name} on ${on_string}: Rounded absolute scale copy numbers integer (not log2 ratios)" from_work_dir="tumor.call.cns" /> |
| 97 </outputs> | 97 </outputs> |
| 98 <tests> | 98 <tests> |
| 99 <test expect_num_outputs="1"> | 99 <test expect_num_outputs="1"> |
| 100 <param name="input_sample_file" ftype="tabular" value="tumor.cns" /> | 100 <param name="input_sample_file" ftype="tabular" value="tumor.cns" /> |
| 101 <param name="zygosity_freq" value="0.25" /> | 101 <section name="additional_SNP_allelic_process"> |
| 102 <param name="min_variant_depth" value="40" /> | 102 <param name="zygosity_freq" value="0.25" /> |
| 103 <param name="purity" value="1" /> | 103 <param name="min_variant_depth" value="40" /> |
| 104 </section> | |
| 105 <section name="advanced_settings"> | |
| 106 <param name="purity" value="1" /> | |
| 107 </section> | |
| 104 <output name="out_sample_Bintest"> | 108 <output name="out_sample_Bintest"> |
| 105 <assert_contents><has_text_matching expression="chrM"/></assert_contents> | 109 <assert_contents><has_text_matching expression="chrM"/></assert_contents> |
| 106 </output> | 110 </output> |
| 107 </test> | 111 </test> |
| 108 <test expect_num_outputs="1"> | 112 <test expect_num_outputs="1"> |
| 109 <conditional name="Sample_sex"> | 113 <section name="advanced_settings"> |
| 110 <param name="sex" value="yes" /> | 114 <conditional name="Sample_sex"> |
| 111 </conditional> | 115 <param name="sex" value="yes" /> |
| 116 </conditional> | |
| 117 <param name="purity" value="1" /> | |
| 118 </section> | |
| 112 <param name="input_sample_file" ftype="tabular" value="tumor.cns" /> | 119 <param name="input_sample_file" ftype="tabular" value="tumor.cns" /> |
| 113 <param name="min_variant_depth" value="40" /> | 120 <section name="additional_SNP_allelic_process"> |
| 114 <param name="purity" value="1" /> | 121 <param name="min_variant_depth" value="40" /> |
| 122 </section> | |
| 115 <output name="out_sample_Bintest"> | 123 <output name="out_sample_Bintest"> |
| 116 <assert_contents><has_text_matching expression="chrM"/></assert_contents> | 124 <assert_contents><has_text_matching expression="chrM"/></assert_contents> |
| 117 </output> | 125 </output> |
| 118 </test> | 126 </test> |
| 119 </tests> | 127 </tests> |